1t5s
Structure of the (SR)Ca2+-ATPase Ca2-E1-AMPPCP form
SAXS 散射曲线 SAXS Profile
P(r) 距离分布 P(r) Distribution
1. 结构基本信息 1. Structure Basics
| 条目编号 entry_id | 1t5s |
| 沉积日期 deposition_date | 2004-05-05 |
| 结构标题 title | Structure of the (SR)Ca2+-ATPase Ca2-E1-AMPPCP form |
| 关键词 keywords | ;Calcium pump, membrane protein, nonhydrolyzable ATP analog, nucleotide binding, catalytic mechanism, phosphorylation, domain movements, HYDROLASE ;; HYDROLASE |
| 实验方法 method | X-RAY DIFFRACTION |
2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)
| 回转半径 Rg (Guinier) rg_guinier | 37.25 Å |
| 回转半径 Rg (电子) rg_electron | 37.88 Å |
| 零角强度 I(0) i0 | 181267000.00 |
| 分子量 molecular_weight | 110110.0 kDa |
| 排除体积 excluded_volume | 138480 ų |
| 包络体积 envelope_volume | 180710 ų |
| 水化壳体积 shell_volume | 42228 ų |
| 包络直径 envelope_diameter | 142.5 Å |
| 壳层 Rg shell_rg | 40.79 Å |
| 包络 Rg envelope_rg | 38.09 Å |
| 形状 Rg shape_rg | 37.95 Å |
| 总 Rg total_rg | 37.82 Å |
| 总原子数 total_atoms | 7706 |
| 残基数 n_residues | 994 |
| 球谐函数阶数 n_harmonics | 20 |
| q 范围 q_range | — – 0.5000 Å−1 |
| 数据点数 n_points | 101 |
| 壳层类型 shell_type | directional |
| 溶剂电子密度 solvent_density | 0.3340 e/ų |
| 壳层衬度 contrast_shell | 0.0300 e/ų |
| CRYSOL 版本 crysol_version | 4.1.3 |
3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)
| 最大尺寸 Dmax dmax | 133.8 Å |
| Rg (实空间) rg_real | 37.74 Å |
| Rg 误差 (实空间) rg_real_error | 1.80 Å |
| I(0) (实空间) i0_real | 1.8130e+08 |
| I(0) 误差 (实空间) i0_real_error | 3.1020e+06 |
| Rg (倒空间) rg_reciprocal | 37.44 Å |
| I(0) (倒空间) i0_reciprocal | 181200000.0000 |
| 解质量估计 total_estimate | 0.7950 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 1 |
| 主峰位置 r_peak_primary | 31.9 Å |
| 偏度 Skewness skewness | 0.625 |
| 峰度 Kurtosis kurtosis | -0.205 |
| 角度范围 angular_range | — – 0.2100 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 35800000.0000 |
| 实空间数据点数 n_real_points | 43 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.582; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.741; Smooth: 0.846 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (6)
6. 折叠分类 (SCOP + CATH) 8 domains
SCOP 2.08 (4 domains)
| 结构域编号 domain_id | d1t5sa1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.82 — Double-stranded beta-helix |
| 超家族 Superfamily superfamily | b.82.7 — Metal cation-transporting ATPase, actuator domain A |
| 家族 Family family | b.82.7.1 — Metal cation-transporting ATPase, actuator domain A |
| 结构域编号 domain_id | d1t5sa2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.108 — HAD-like |
| 超家族 Superfamily superfamily | c.108.1 — HAD-like |
| 家族 Family family | c.108.1.7 — Meta-cation ATPase, catalytic domain P |
| 结构域编号 domain_id | d1t5sa3 |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.220 — Metal cation-transporting ATPase, ATP-binding domain N |
| 超家族 Superfamily superfamily | d.220.1 — Metal cation-transporting ATPase, ATP-binding domain N |
| 家族 Family family | d.220.1.1 — Metal cation-transporting ATPase, ATP-binding domain N |
| 结构域编号 domain_id | d1t5sa4 |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.33 — Metal cation-transporting ATPase, transmembrane domain |
| 超家族 Superfamily superfamily | f.33.1 — Metal cation-transporting ATPase, transmembrane domain |
| 家族 Family family | f.33.1.1 — Metal cation-transporting ATPase, transmembrane domain |
CATH v4.4 (4 domains)
| 结构域编号 domain_id | 1t5sA01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 70 — Distorted Sandwich |
| 拓扑 Topology topology | 150 — Calcium-transporting ATPase, cytoplasmic transduction domain A |
| 同源超家族 H-superfamily homologous superfamily | 10 — Calcium-transporting ATPase, cytoplasmic transduction domain A |
| 结构域编号 domain_id | 1t5sA02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1110 — Calcium-transporting ATPase, transmembrane domain |
| 同源超家族 H-superfamily homologous superfamily | 10 — Calcium-transporting ATPase, transmembrane domain |
| 结构域编号 domain_id | 1t5sA03 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1110 — Calcium-transporting ATPase, cytoplasmic domain N |
| 同源超家族 H-superfamily homologous superfamily | 10 — Calcium-transporting ATPase, cytoplasmic domain N |
| 结构域编号 domain_id | 1t5sA04 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 50 — Rossmann fold |
| 同源超家族 H-superfamily homologous superfamily | 1000 — HAD superfamily/HAD-like |